For those of you who have been experiencing a reported attack site warning from Google or Firefox, we have managed to completely remove the infection as of December 29th and so the site is now safe to visit. We anticipate that the warning will be removed shortly once they have time to scan our site again.
I am still in the process of updating all of the pages to account for some of the changes, so some links are broken - the very first thing I did was totally delete the pages causing the vulnerabilities, which in fact were not even being officially used anymore.